 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Dec 19, 2014 |
| Title |
Colon Tissue Sample_50 |
| Sample type |
genomic |
| |
|
| Source name |
Colon tissue, tumor
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: colorectal cancer (CRC)
tissue: colon tumor
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
QIAGEN Gentra Puregene kit standard protocol.
|
| Label |
C-Bio and A-DNP
|
| Label protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
|
| |
|
| Hybridization protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
|
| Scan protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using the Illumina BeadArray scanner.
|
| Data processing |
Illumina BeadStudio v3.3.4 normalized intensity values and BAF data were imported into PARTEK Genomics Suite for statistical analysis.
|
| |
|
| Submission date |
Dec 23, 2011 |
| Last update date |
Dec 19, 2014 |
| Contact name |
Muhammad Ghulam Kibriya |
| E-mail(s) |
kibriya@uchicago.edu
|
| Organization name |
The University of Chicago
|
| Department |
Health Studies
|
| Street address |
900 E 57th Street
|
| City |
Chicago |
| ZIP/Postal code |
60637 |
| Country |
USA |
| |
|
| Platform ID |
GPL13829 |
| Series (1) |
| GSE34678 |
A Genome-wide Study of Cytogenetic Changes in Colorectal Cancer Using SNP Microarrays: Possibilities for Future Personalized Treatment |
|
| Data table header descriptions |
| ID_REF |
|
| VALUE |
Genotype: AA, AB, BB, or NC (no call) |
| Score |
Score |
| Theta |
Theta |
| R |
R |
| B Allele Freq |
BAF |
| Log R Ratio |
Log R Ratio |
| Data table |
| ID_REF |
VALUE |
Score |
Theta |
R |
B Allele Freq |
Log R Ratio |
| cnvi0111185 |
NC |
0 |
0.978349 |
1.308916 |
1 |
-0.1510418 |
| cnvi0111186 |
NC |
0 |
0.00879282 |
0.5724716 |
0 |
0.2010395 |
| cnvi0111187 |
NC |
0 |
0.9826773 |
1.570056 |
0.997429 |
0.0391998 |
| cnvi0111188 |
NC |
0 |
0.009577865 |
1.257922 |
0 |
-0.05302184 |
| cnvi0111189 |
NC |
0 |
0.02126029 |
1.420409 |
0 |
-0.02200417 |
| cnvi0111190 |
NC |
0 |
0.001765881 |
0.4193509 |
0 |
0.2250281 |
| cnvi0111191 |
NC |
0 |
0.03061112 |
1.06205 |
0.002061887 |
-0.04998024 |
| cnvi0111192 |
NC |
0 |
0.01490515 |
0.9895163 |
0 |
-0.1708639 |
| cnvi0111193 |
NC |
0 |
0.008346955 |
1.278586 |
0 |
0.07472503 |
| cnvi0111194 |
NC |
0 |
0.9822584 |
1.277597 |
0.9993284 |
-0.0587622 |
| cnvi0111195 |
NC |
0 |
0.03258976 |
2.421006 |
3.75823E-05 |
0.3102152 |
| cnvi0111196 |
NC |
0 |
0.9836542 |
0.9807605 |
1 |
-0.3237375 |
| cnvi0111197 |
NC |
0 |
0.008747688 |
0.9853243 |
0 |
0.1424653 |
| cnvi0111198 |
NC |
0 |
0.9750458 |
1.275134 |
1 |
-0.02457266 |
| cnvi0111199 |
NC |
0 |
0.01222206 |
1.428689 |
0 |
0.1681328 |
| cnvi0111200 |
NC |
0 |
0.9862116 |
0.9152579 |
1 |
0.053445 |
| cnvi0111201 |
NC |
0 |
0.01383494 |
0.8033642 |
0 |
-0.2032639 |
| cnvi0111202 |
NC |
0 |
0.9303225 |
1.421029 |
1 |
0.0920451 |
| cnvi0111203 |
NC |
0 |
0.02741681 |
1.953613 |
0.002594305 |
0.2377103 |
| cnvi0111204 |
NC |
0 |
0.995419 |
1.232367 |
1 |
0.01645615 |
Total number of rows: 299140
Table truncated, full table size 17192 Kbytes.
| Supplementary data files not provided |
| Processed data included within Sample table |
|
|
|
|
 |
